The development and protection of Shangri-La wetlands in southwestern Yunnan Province is of great significance for the protection of regional biodiversity, ecotourism and regional development. To specify the functions of Shangri-La wetlands, with the help of Analytic Hierarchy Process (AHP), 7 typical wetlands in Shangri-La (Bita Lake Wetland, Napa Lake Wetland, Shudu Lake Wetland, Dazhongdian Wetland, Xiaozhongdian Wetland, Dahei Lake Wetland, Jinsha River Wetland) were selected for the quantitative analysis of 20 indexes in 3 comprehensive assessment layers (service functions, protective functions and production functions). The results showed that Shangri-La wetlands followed the below sequence in function: Bita Lake Wetland (0.811 4), Shudu Lake Wetland (0.739 3), Napa Lake Wetland (0.695 3), Dahei Lake Wetland (0.659 5), Jinsha River Wetland (0.614 3), Dazhongdian Wetland (0.520 4) and Xiaozhongdian Wetland (0.505 2). As single indexes of those wetlands were compared, it was found that values of certain indexes varied greatly, and value differences among 5 of 20 indexes even reached more than 100%, among which that of water supply capacity and tourism recreational value (164.60%) remained the highest, then water supplementation capacity (121.17%) and habitat stability (109.05%), and others varied between 5.58%-91.10%. The assessment results were similar to actual conditions, thus such a method was proved scientific and practical.